RetrogeneDB ID:

retro_ogar_1835

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873569.1:6586067..6586950(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPS2
Ensembl ID:ENSOGAG00000010098
Aliases:None
Description:ribosomal protein S2 [Source:HGNC Symbol;Acc:10404]


Retrocopy-Parental alignment summary:






>retro_ogar_1835
ATGGCAGATGACACTGGTGCAGCAGGAAGGCCTAGAGGCTCTGGGGGCCCCGGAATGGGAAGCCATGGTGGTTTCCGTGG
AGGCTTCAGCAGCGGCATTCATTTGGGCCAGGGTCACAGCTGTGGTGTGGGTTGGGGCTGAGGCCGCAGAGTTCATGGAG
GCAAGGCCAAGGACAAAGAGTCGATGCCTGTCACCAAGCTGGGCCACCTGGTCAAGGACATGAAGATCAATCCCTGGAGG
GAGCTATCTCTTCTCCCTGCCCATTAAGGAATCTGAGATCATTGATTTTTTTTCTTGGGGGCATCTCTCAAGGATGAAGT
TTTGAAGATTATGCCAGTGCAAAAAATAGACCCACACTGGCCAGCGGACCAGGTTCAAGGCATGTGTTGCCATTGGGGAC
TACAATGGCCATGTCGATCTGAGTGTTAAGTGTTCCAAGGAAGTAGCCACTGCCATCTGAGGGGCCATCATCCTGGCCAA
GCTCTCTATTGTCCCAGTGCGGGGAGGCTACTGGGGGAATAAGATCGACAAGCCTTACCCTGTTCCTTGCAAGGTGACAG
GCCACTGTGGCTCTGTGCTGGTAGGTCTCATCCCTGCTCCTAGAGGAACTGGCATTGTCTCAGCGCCTGTGCCTAAGAAG
CTGCTAATGATGACTGGGATCAATGACTGCTACATTTCAGCTAGGGGCTGCACTGCCACCCTGGGCAACTTTGCCAAGGC
CACTTTTGATGCCATTTCCAAGACCTATAGCTATTTCACTCCTGACTTCTGGGAAGACACAGTATTCACCAAGTCTCTTT
ACCAAGAATTCACTGACCATCTTGTCAAGACCCACACCAGAGTCTCTGTGCAGAGGACCCAGGCTCCAGCTGTGGCTACA
ACA

ORF - retro_ogar_1835 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 78.45 %
Parental protein coverage: 100. %
Number of stop codons detected: 2
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalMADDAGAAGGPGGPGGPGMGGRGGFRGGFGSGIR-GRGRGRGRGRGRGRGARGGKAEDKEWMPVTKLGRL
MADD.GAAG.P.G.GGPGMG..GGFRGGF.SGI..G.G...G.G.G.GR...GGKA.DKE.MPVTKLG.L
RetrocopyMADDTGAAGRPRGSGGPGMGSHGGFRGGFSSGIHLGQGHSCGVGWG*GRRVHGGKAKDKESMPVTKLGHL
ParentalVKDMKI-KSLEEIYLFSLPIKESEIIDFFLG-ASLKDEVLKIMPVQKQ-TRAGQRTRFKAFVAIGDYNGH
VKDMKI..SLE.......P..........LG.ASLKDEVLKIMPVQK..T..GQRTRFKA.VAIGDYNGH
RetrocopyVKDMKI<QSLEGAISSPCPLRNLRSLXXXLG>ASLKDEVLKIMPVQKI>THTGQRTRFKACVAIGDYNGH
ParentalVGLGVKCSKEVATAIRGAIILAKLSIVPVRRGYWGNKIGKPHTVPCKVTGRCGSVLVRLIPAPRGTGIVS
V.L.VKCSKEVATAI.GAIILAKLSIVPVR.GYWGNKI.KP..VPCKVTG.CGSVLV.LIPAPRGTGIVS
RetrocopyVDLSVKCSKEVATAI*GAIILAKLSIVPVRGGYWGNKIDKPYPVPCKVTGHCGSVLVGLIPAPRGTGIVS
ParentalAPVPKKLLMMAGIDDCYTSARGCTATLGNFAKATFDAISKTYSYLTPDLWKETVFTKSPYQEFTDHLVKT
APVPKKLLMM.GI.DCY.SARGCTATLGNFAKATFDAISKTYSY.TPD.W..TVFTKS.YQEFTDHLVKT
RetrocopyAPVPKKLLMMTGINDCYISARGCTATLGNFAKATFDAISKTYSYFTPDFWEDTVFTKSLYQEFTDHLVKT
ParentalHTRVSVQRTQAPAVATT
HTRVSVQRTQAPAVATT
RetrocopyHTRVSVQRTQAPAVATT

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






Otolemur garnettii was not studied using RNA-Seq expression data.
Otolemur garnettii was not studied using ChIP-Seq data.
Otolemur garnettii was not studied using EST data.
Otolemur garnettii was not studied using FANTOM5 data.
retro_ogar_1835 was not experimentally validated.

Retrocopy orthology:
Otolemur garnettii does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

Parental genes homology:
Parental genes homology involve 9 parental genes, and 139 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000025491 retrocopy
Felis catus ENSFCAG000000291916 retrocopies
Homo sapiens ENSG0000014098847 retrocopies
Macropus eugenii ENSMEUG000000045082 retrocopies
Microcebus murinus ENSMICG0000001276528 retrocopies
Monodelphis domestica ENSMODG000000160771 retrocopy
Otolemur garnettii ENSOGAG00000010098 19 retrocopies
Sarcophilus harrisii ENSSHAG000000152135 retrocopies
Tupaia belangeri ENSTBEG0000000672630 retrocopies



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